Variant report

Variant	rs922529
Chromosome Location	chr15:92821292-92821293
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:51)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:51 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr15:92821015-92821377	H1-hESC	embryonic stem cell:	n/a	n/a
2	RAD21	chr15:92820884-92821450	H1-hESC	embryonic stem cell:	n/a	n/a
3	CTCF	chr15:92821085-92821328	MCF-7	breast:	n/a	n/a
4	CTCF	chr15:92821089-92821293	Fibrobl	skin:	n/a	n/a
5	CTCF	chr15:92821057-92821325	A549	lung:	n/a	n/a
6	CTCF	chr15:92821068-92821296	GM12878	blood:	n/a	n/a
7	CTCF	chr15:92821034-92821321	Gliobla	brain:	n/a	n/a
8	SMC3	chr15:92820997-92821363	Hela-S3	cervix:	n/a	n/a
9	RAD21	chr15:92820904-92821452	MCF-7	breast:	n/a	n/a
10	CTCF	chr15:92821140-92821390	HFF-Myc	foreskin:	n/a	n/a
11	RAD21	chr15:92821040-92821332	A549	lung:	n/a	n/a
12	FOS	chr15:92821152-92821352	MCF10A-Er-Src	breast:	n/a	n/a
13	CTCF	chr15:92820813-92821533	SK-N-SH	brain:	n/a	n/a
14	CTCF	chr15:92821030-92821322	MCF-7	breast:	n/a	n/a
15	SMC3	chr15:92821052-92821337	HepG2	liver:	n/a	n/a
16	CTCF	chr15:92821123-92821296	GM12891	blood:	n/a	n/a
17	FOS	chr15:92821164-92821306	MCF10A-Er-Src	breast:	n/a	n/a
18	SMC3	chr15:92821027-92821351	GM12878	blood:	n/a	n/a
19	RAD21	chr15:92820934-92821427	A549	lung:	n/a	n/a
20	CTCF	chr15:92821200-92821350	HMF	breast:	n/a	n/a
21	RAD21	chr15:92820906-92821477	MCF-7	breast:	n/a	n/a
22	SMC3	chr15:92820766-92821610	SK-N-SH	brain:	n/a	n/a
23	CTCF	chr15:92821118-92821318	A549	lung:	n/a	n/a
24	CTCF	chr15:92821003-92821478	MCF-7	breast:	n/a	n/a
25	RAD21	chr15:92821056-92821311	HepG2	liver:	n/a	n/a
26	RAD21	chr15:92821042-92821376	H1-hESC	embryonic stem cell:	n/a	n/a
27	CTCF	chr15:92821099-92821305	MCF-7	breast:	n/a	n/a
28	RAD21	chr15:92820933-92821398	SK-N-SH_RA	brain:	n/a	n/a
29	CTCF	chr15:92821046-92821327	Medullo	brain:	n/a	n/a
30	ZNF143	chr15:92821016-92821341	GM12878	blood:	n/a	n/a
31	CTCF	chr15:92821099-92821293	MCF-7	breast:	n/a	n/a
32	CTCF	chr15:92821092-92821301	GM12892	blood:	n/a	n/a
33	CTCF	chr15:92820833-92821555	A549	lung:	n/a	n/a
34	RAD21	chr15:92820898-92821456	A549	lung:	n/a	n/a
35	CTCF	chr15:92820997-92821379	GM12878	blood:	n/a	n/a
36	STAT3	chr15:92821161-92821332	MCF10A-Er-Src	breast:	n/a	n/a
37	CTCF	chr15:92820857-92821447	MCF-7	breast:	n/a	n/a
38	USF2	chr15:92821079-92821342	Hela-S3	cervix:	n/a	n/a
39	CTCF	chr15:92820882-92821443	HCT-116	colon:	n/a	n/a
40	CTCF	chr15:92820961-92821299	H1-hESC	embryonic stem cell:	n/a	n/a
41	CTCF	chr15:92821074-92821301	NHEK	skin:	n/a	n/a
42	RAD21	chr15:92820740-92821592	SK-N-SH	brain:	n/a	n/a
43	RAD21	chr15:92821019-92821370	Hela-S3	cervix:	n/a	n/a
44	STAT3	chr15:92821143-92821368	MCF10A-Er-Src	breast:	n/a	n/a
45	CTCF	chr15:92821041-92821316	A549	lung:	n/a	n/a
46	CTCF	chr15:92821088-92821311	GM19238	blood:	n/a	n/a
47	CTCF	chr15:92821043-92821305	MCF-7	breast:	n/a	n/a
48	RAD21	chr15:92821004-92821362	H1-hESC	embryonic stem cell:	n/a	n/a
49	CTCF	chr15:92821112-92821324	K562	blood:	n/a	n/a
50	GTF2F1	chr15:92821286-92821302	H1-hESC	embryonic stem cell:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:92820715..92821706-chr15:92923043..92923956,5	MCF-7	breast:
2	chr15:92820714..92821615-chr15:92926445..92927465,5	MCF-7	breast:
3	chr15:92821115..92821619-chr15:92926896..92927469,2	MCF-7	breast:
4	chr15:92640575..92641424-chr15:92820669..92821685,3	MCF-7	breast:

No data

Variant related genes	Relation type
DUXAP6	TF binding region
ENSG00000176463	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11074057	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17520707	0.90[EUR][1000 genomes]
rs2387686	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs3889876	0.89[EUR][1000 genomes]
rs4777929	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8027648	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8041305	0.97[EUR][1000 genomes]
rs922530	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs922531	0.87[CHB][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948621	chr15:92688981-93158095	Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv1049561	chr15:92758434-93097965	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv1037972	chr15:92804908-93270761	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92813200-92822800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr15:92821200-92822600	Enhancers	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links